genome.fa.s101.2.7.7.80.10.50.1000.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold101
Parameters: 2 7 7 80 10 50 1000
Length:  827217

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 650 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585170--585195	2	13.0	2	100	0	52	50	0	0	50	1.00
587638--587687	25	2.1	24	82	14	59	40	2	0	58	1.10
587923--587960	16	2.3	17	86	13	53	71	0	0	28	0.87
588253--588301	10	5.1	9	83	11	62	81	0	14	4	0.83
588253--588301	19	2.5	19	83	9	64	81	0	14	4	0.83
588253--588301	9	5.2	9	83	9	62	81	0	14	4	0.83
588382--588434	23	2.2	24	83	3	63	24	1	3	69	1.15
588376--588433	24	2.4	24	80	8	64	24	1	5	68	1.19
589330--589392	26	2.4	28	84	10	80	46	0	0	53	1.00
589338--589383	22	2.2	22	84	7	60	41	0	0	58	0.98
590101--590141	2	21.5	2	80	9	50	48	4	0	46	1.23
590098--590141	17	2.4	18	88	7	63	50	4	0	45	1.22
590118--590681	274	2.0	278	94	1	994	40	5	3	51	1.41
590586--590728	73	2.0	73	94	0	250	37	5	2	53	1.39
591929--592049	8	14.0	8	66	28	54	56	2	1	39	1.23
592007--592047	19	2.3	19	87	8	59	58	4	2	34	1.32
594507--594540	13	2.4	14	85	14	52	38	0	0	61	0.96
594706--594769	12	5.7	12	75	19	66	62	0	0	37	0.95
594713--594820	31	3.3	32	76	12	96	58	0	0	41	0.98
594754--594816	26	2.4	28	82	15	80	50	0	0	49	1.00
594804--594829	10	2.6	10	100	0	52	69	0	0	30	0.89
594868--594892	2	12.5	2	100	0	50	0	48	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596903--596961	25	2.4	25	77	5	66	57	0	0	42	0.98
596897--596967	18	3.8	19	82	10	85	56	0	0	43	0.99
597252--597280	2	14.5	2	100	0	58	0	48	0	51	1.00
604712--604801	17	5.0	17	74	12	65	56	0	1	42	1.06
606653--606727	22	3.5	22	67	16	59	58	1	0	40	1.06
606941--606965	2	12.5	2	100	0	50	52	0	0	48	1.00
607210--607312	9	10.8	10	68	21	62	62	0	0	36	1.02
607210--607312	18	5.4	18	72	20	77	62	0	0	36	1.02
607339--607366	2	14.0	2	100	0	56	50	0	0	50	1.00
607562--607614	19	2.8	18	86	10	72	49	1	1	47	1.23
611007--611038	3	10.3	3	93	6	55	65	0	3	31	1.08
611167--611208	20	2.0	21	86	13	61	30	0	4	64	1.14
611364--611388	13	1.9	13	100	0	50	44	0	0	56	0.99
612092--612140	2	24.5	2	95	0	89	48	2	0	48	1.12
613946--614037	29	3.1	28	76	13	87	40	13	2	44	1.55
621043--621134	43	2.0	45	83	8	116	30	18	17	33	1.94
624930--624963	16	2.1	16	88	0	50	35	2	0	61	1.11
625190--625244	18	2.9	18	81	5	56	32	3	1	61	1.24
626640--626697	27	2.1	27	84	6	73	36	0	5	58	1.20
626659--626758	29	3.3	29	74	20	73	41	0	4	55	1.19
626906--626975	30	2.3	31	78	7	81	45	0	0	54	0.99
627384--627429	14	3.2	14	84	3	65	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627385--627430	15	3.1	15	81	12	60	39	0	0	60	0.97
627444--627500	20	3.0	19	85	12	73	57	0	1	40	1.09
627444--627500	18	3.0	18	82	17	71	57	0	1	40	1.09
627484--627535	24	2.1	26	82	7	63	59	0	0	40	0.97
627843--627886	16	2.6	17	82	10	54	47	0	0	52	1.00
627882--627937	24	2.2	25	84	6	69	23	0	5	71	1.06
627882--627937	25	2.2	24	81	6	58	23	0	5	71	1.06
640262--640332	31	2.3	31	85	4	90	26	26	9	36	1.88
640738--640770	2	16.5	2	100	0	66	48	0	0	51	1.00
642701--642760	12	5.2	12	73	11	54	53	0	0	46	1.00
643356--643391	2	18.0	2	100	0	72	50	0	0	50	1.00
644637--644661	2	12.5	2	100	0	50	0	0	48	52	1.00
645484--645513	6	5.0	6	100	0	60	33	16	16	33	1.92
645993--646035	12	3.8	12	81	12	54	30	0	18	51	1.47
648156--648205	18	2.9	17	77	8	57	56	2	0	42	1.11
651517--651541	13	1.9	13	100	0	50	0	0	92	8	0.40
654146--654236	46	2.0	46	100	0	182	39	0	14	46	1.45
654974--655009	19	1.9	19	88	5	56	33	0	2	63	1.08
655880--655951	36	2.1	36	82	7	87	40	0	0	59	0.97
656210--656278	31	2.2	32	84	7	88	50	0	0	49	1.00
656207--656255	20	2.4	21	83	16	68	53	0	0	46	1.00
658523--658592	31	2.2	32	76	2	79	51	1	0	47	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659622--659681	11	5.5	11	78	9	61	36	1	0	61	1.06
659603--659673	20	3.5	20	78	14	56	40	0	0	59	0.98
662008--662058	19	2.6	21	78	15	63	45	0	0	54	0.99
662950--662976	2	13.5	2	100	0	54	51	0	0	48	1.00
687528--687557	2	15.0	2	100	0	60	50	0	0	50	1.00
688252--688280	7	4.1	7	100	0	58	17	13	27	41	1.87
688583--688643	17	3.5	18	71	8	63	40	0	6	52	1.27
688581--688645	34	1.9	34	96	0	121	41	0	6	52	1.26
688830--688881	15	3.4	15	76	5	59	48	7	3	40	1.50
689605--689647	20	2.2	19	88	12	61	69	0	0	30	0.88
689606--689659	24	2.3	23	87	12	74	70	0	0	29	0.88
689606--689645	13	2.9	14	86	13	57	72	0	0	27	0.85
690353--690410	28	2.1	28	83	6	73	37	1	1	58	1.18
690384--690439	25	2.3	24	80	14	62	48	0	0	51	1.00
690384--690440	24	2.3	26	84	6	73	49	0	0	50	1.00
693288--693337	22	2.3	23	82	10	68	58	0	2	40	1.10
693922--693952	5	6.2	5	92	0	53	3	38	0	58	1.15
696843--696976	72	1.9	72	87	3	198	51	8	6	33	1.58
697848--697902	20	2.7	20	78	13	67	38	0	1	60	1.08
697859--697899	22	1.9	21	85	5	55	39	0	2	58	1.11
700355--700389	15	2.3	15	90	0	52	57	2	0	40	1.14
701770--701820	15	3.4	14	79	15	57	41	1	1	54	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
701751--701825	31	2.3	32	86	4	98	41	2	2	53	1.29
701771--701838	31	2.2	31	81	5	75	42	4	2	50	1.37
703216--703264	25	1.9	25	87	4	71	55	0	0	44	0.99
703216--703330	24	4.8	24	68	21	73	61	0	0	37	1.02
703232--703331	44	2.3	44	84	3	121	63	0	1	36	1.02
703280--703350	18	4.1	17	72	18	56	67	0	0	32	0.91
703276--703359	25	3.2	25	76	17	82	64	0	0	35	0.94
703280--703350	17	4.1	18	69	18	60	67	0	0	32	0.91
703290--703356	19	3.7	19	75	13	61	62	0	0	37	0.95
703546--703600	27	1.9	30	82	17	73	47	5	1	45	1.36
703608--703651	15	2.8	16	82	10	54	36	0	0	63	0.95
703843--703878	8	4.5	8	96	0	63	41	0	0	58	0.98
704663--704705	3	14.3	3	100	0	86	65	0	0	34	0.93
706763--706810	18	2.7	18	83	0	60	39	45	10	4	1.58
708107--708152	23	2.0	23	100	0	92	30	21	8	39	1.84
714981--715006	12	2.2	12	100	0	52	23	0	7	69	1.14
716386--716443	23	2.5	23	71	2	62	58	0	0	41	0.98
716459--716492	16	2.1	16	88	0	50	38	0	0	61	0.96
717325--717386	21	2.7	24	74	23	62	38	0	0	61	0.96
717792--717855	33	1.9	32	84	12	85	50	1	0	48	1.10
721836--722120	144	2.0	144	91	6	461	27	16	16	38	1.91
723791--723818	14	2.0	14	100	0	56	0	42	7	50	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
724367--724394	2	14.0	2	100	0	56	0	50	0	50	1.00
724394--724418	2	12.5	2	100	0	50	48	0	0	52	1.00
725304--725342	17	2.3	17	86	0	60	43	0	5	51	1.24
725343--725389	11	4.5	11	75	20	55	46	0	0	53	1.00
731094--731429	88	3.8	87	77	4	291	31	13	13	40	1.85
731122--731519	175	2.3	175	79	2	397	31	13	13	41	1.83
731860--731907	15	3.2	15	81	0	60	8	20	22	47	1.77
734069--734106	20	1.9	20	88	0	58	52	0	0	47	1.00
736171--736208	13	3.0	13	88	3	51	71	2	0	26	1.00
737640--737682	21	2.1	20	82	4	50	25	4	0	69	1.07

Tables:   1   2   3   4   5   6